Hi Jon,
Have you tried using the TBSS tools?
tbss_2_reg
could do this for you.
Best wishes,
Barbara
On 29/07/2016 13:25, Jon Anderson wrote:
> Dear Experts,
> What is the correct method to register FA maps to FMRIB58 space?
> I tried to use the command flirt as follow:
>
> flirt -in FA_MAP.nii.gz -ref /autofs/cluster/pubsw/2/pubsw/Linux2-2.3-x86_64/packages/fsl.64bit/5.0.7/data/standard/FMRIB_58.nii.gz -out FA_MAP.FMRIB.nii.gz -omat FA_MAPS.FMRIB.mat -bins 256 -cost corratio -searchrx -90 90 -searchry -90 90 -searchrz -90 90 -dof 12 -interp trilinear &
>
> The results was totally depressing. When I merge the resultant FA maps ( using fslmerge -t ... ), I see that all of these registered FA maps are in FMRIB58 but they are not matching with each other ( the registration is very poor).
>
> Any suggestions to get the optimal and best registration between these FA maps and FMRIB58 are highly appreciated.
>
> Thanks in advance
> Jon
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